{"id":"https://openalex.org/W2012523084","doi":"https://doi.org/10.1186/1471-2105-15-241","title":"Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions","display_name":"Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions","publication_year":2014,"publication_date":"2014-07-14","ids":{"openalex":"https://openalex.org/W2012523084","doi":"https://doi.org/10.1186/1471-2105-15-241","mag":"2012523084","pmid":"https://pubmed.ncbi.nlm.nih.gov/25017736"},"language":"en","primary_location":{"id":"doi:10.1186/1471-2105-15-241","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-241","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-241","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"type":"article","indexed_in":["crossref","doaj","pubmed"],"open_access":{"is_oa":true,"oa_status":"gold","oa_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-241","any_repository_has_fulltext":true},"authorships":[{"author_position":"first","author":{"id":"https://openalex.org/A5019044037","display_name":"Yohan Kim","orcid":"https://orcid.org/0000-0002-2829-1212"},"institutions":[{"id":"https://openalex.org/I1311191458","display_name":"La Jolla Institute for Immunology","ror":"https://ror.org/05vkpd318","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1311191458"]}],"countries":["US"],"is_corresponding":true,"raw_author_name":"Yohan Kim","raw_affiliation_strings":["La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA","institution_ids":["https://openalex.org/I1311191458"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5037285448","display_name":"John Sidney","orcid":"https://orcid.org/0000-0002-0987-405X"},"institutions":[{"id":"https://openalex.org/I1311191458","display_name":"La Jolla Institute for Immunology","ror":"https://ror.org/05vkpd318","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1311191458"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"John Sidney","raw_affiliation_strings":["La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA","institution_ids":["https://openalex.org/I1311191458"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5004800654","display_name":"S\u00f8ren Buus","orcid":"https://orcid.org/0000-0001-8363-1999"},"institutions":[{"id":"https://openalex.org/I124055696","display_name":"University of Copenhagen","ror":"https://ror.org/035b05819","country_code":"DK","type":"education","lineage":["https://openalex.org/I124055696"]}],"countries":["DK"],"is_corresponding":false,"raw_author_name":"S\u00f8ren Buus","raw_affiliation_strings":["Department of International Health, Immunology and Microbiology, University of Copenhagen, Blegdamsvej 3, 2200, K\u00f8benhavn N, Copenhagen, Denmark"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Department of International Health, Immunology and Microbiology, University of Copenhagen, Blegdamsvej 3, 2200, K\u00f8benhavn N, Copenhagen, Denmark","institution_ids":["https://openalex.org/I124055696"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5010966529","display_name":"Alessandro Sette","orcid":"https://orcid.org/0000-0001-7013-2250"},"institutions":[{"id":"https://openalex.org/I1311191458","display_name":"La Jolla Institute for Immunology","ror":"https://ror.org/05vkpd318","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1311191458"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Alessandro Sette","raw_affiliation_strings":["La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA","institution_ids":["https://openalex.org/I1311191458"]}]},{"author_position":"middle","author":{"id":"https://openalex.org/A5076702280","display_name":"Morten Nielsen","orcid":"https://orcid.org/0000-0001-7885-4311"},"institutions":[{"id":"https://openalex.org/I96673099","display_name":"Technical University of Denmark","ror":"https://ror.org/04qtj9h94","country_code":"DK","type":"education","lineage":["https://openalex.org/I96673099"]},{"id":"https://openalex.org/I228664971","display_name":"National University of General San Mart\u00edn","ror":"https://ror.org/00v29jp57","country_code":"AR","type":"education","lineage":["https://openalex.org/I228664971"]}],"countries":["AR","DK"],"is_corresponding":false,"raw_author_name":"Morten Nielsen","raw_affiliation_strings":["Center for Biological Sequence Analysis, Department of Systems Biology, The Technical University of Denmark, Building 208, Lyngby, DK-2800, Denmark","Instituto de Investigaciones Biotecnol\u00f3gicas, Universidad Nacional de San Mart\u00edn, San Mart\u00edn, Buenos Aires, B 1650, HMP, Argentina"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"Center for Biological Sequence Analysis, Department of Systems Biology, The Technical University of Denmark, Building 208, Lyngby, DK-2800, Denmark","institution_ids":["https://openalex.org/I96673099"]},{"raw_affiliation_string":"Instituto de Investigaciones Biotecnol\u00f3gicas, Universidad Nacional de San Mart\u00edn, San Mart\u00edn, Buenos Aires, B 1650, HMP, Argentina","institution_ids":["https://openalex.org/I228664971"]}]},{"author_position":"last","author":{"id":"https://openalex.org/A5023547268","display_name":"Bjoern Peters","orcid":"https://orcid.org/0000-0002-8457-6693"},"institutions":[{"id":"https://openalex.org/I1311191458","display_name":"La Jolla Institute for Immunology","ror":"https://ror.org/05vkpd318","country_code":"US","type":"nonprofit","lineage":["https://openalex.org/I1311191458"]}],"countries":["US"],"is_corresponding":false,"raw_author_name":"Bjoern Peters","raw_affiliation_strings":["La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA. bpeters@liai.org","La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA"],"raw_orcid":null,"affiliations":[{"raw_affiliation_string":"La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA 92037, USA. bpeters@liai.org","institution_ids":[]},{"raw_affiliation_string":"La Jolla Institute for Allergy & Immunology, 9420 Athena Circle, La Jolla, CA, 92037, USA","institution_ids":["https://openalex.org/I1311191458"]}]}],"institutions":[],"countries_distinct_count":3,"institutions_distinct_count":6,"corresponding_author_ids":["https://openalex.org/A5019044037"],"corresponding_institution_ids":["https://openalex.org/I1311191458"],"apc_list":{"value":1690,"currency":"GBP","value_usd":2072},"apc_paid":{"value":1690,"currency":"GBP","value_usd":2072},"fwci":3.2725,"has_fulltext":true,"cited_by_count":82,"citation_normalized_percentile":{"value":0.92572192,"is_in_top_1_percent":false,"is_in_top_10_percent":true},"cited_by_percentile_year":{"min":94,"max":100},"biblio":{"volume":"15","issue":"1","first_page":"241","last_page":"241"},"is_retracted":false,"is_paratext":false,"is_xpac":false,"primary_topic":{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9915000200271606,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},"topics":[{"id":"https://openalex.org/T12576","display_name":"vaccines and immunoinformatics approaches","score":0.9915000200271606,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T12254","display_name":"Machine Learning in Bioinformatics","score":0.002300000051036477,"subfield":{"id":"https://openalex.org/subfields/1312","display_name":"Molecular Biology"},"field":{"id":"https://openalex.org/fields/13","display_name":"Biochemistry, Genetics and Molecular Biology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}},{"id":"https://openalex.org/T10580","display_name":"Immunotherapy and Immune Responses","score":0.0012000000569969416,"subfield":{"id":"https://openalex.org/subfields/2403","display_name":"Immunology"},"field":{"id":"https://openalex.org/fields/24","display_name":"Immunology and Microbiology"},"domain":{"id":"https://openalex.org/domains/1","display_name":"Life Sciences"}}],"keywords":[{"id":"https://openalex.org/keywords/benchmark","display_name":"Benchmark (surveying)","score":0.7021147608757019},{"id":"https://openalex.org/keywords/computer-science","display_name":"Computer science","score":0.5919349193572998},{"id":"https://openalex.org/keywords/predictive-modelling","display_name":"Predictive modelling","score":0.583954930305481},{"id":"https://openalex.org/keywords/set","display_name":"Set (abstract data type)","score":0.573174774646759},{"id":"https://openalex.org/keywords/data-mining","display_name":"Data mining","score":0.558326780796051},{"id":"https://openalex.org/keywords/cross-validation","display_name":"Cross-validation","score":0.5093549489974976},{"id":"https://openalex.org/keywords/reliability","display_name":"Reliability (semiconductor)","score":0.4566231966018677},{"id":"https://openalex.org/keywords/artificial-intelligence","display_name":"Artificial intelligence","score":0.37689051032066345},{"id":"https://openalex.org/keywords/machine-learning","display_name":"Machine learning","score":0.3345333933830261}],"concepts":[{"id":"https://openalex.org/C185798385","wikidata":"https://www.wikidata.org/wiki/Q1161707","display_name":"Benchmark (surveying)","level":2,"score":0.7021147608757019},{"id":"https://openalex.org/C41008148","wikidata":"https://www.wikidata.org/wiki/Q21198","display_name":"Computer science","level":0,"score":0.5919349193572998},{"id":"https://openalex.org/C45804977","wikidata":"https://www.wikidata.org/wiki/Q7239673","display_name":"Predictive modelling","level":2,"score":0.583954930305481},{"id":"https://openalex.org/C177264268","wikidata":"https://www.wikidata.org/wiki/Q1514741","display_name":"Set (abstract data type)","level":2,"score":0.573174774646759},{"id":"https://openalex.org/C124101348","wikidata":"https://www.wikidata.org/wiki/Q172491","display_name":"Data mining","level":1,"score":0.558326780796051},{"id":"https://openalex.org/C27181475","wikidata":"https://www.wikidata.org/wiki/Q541014","display_name":"Cross-validation","level":2,"score":0.5093549489974976},{"id":"https://openalex.org/C43214815","wikidata":"https://www.wikidata.org/wiki/Q7310987","display_name":"Reliability (semiconductor)","level":3,"score":0.4566231966018677},{"id":"https://openalex.org/C154945302","wikidata":"https://www.wikidata.org/wiki/Q11660","display_name":"Artificial intelligence","level":1,"score":0.37689051032066345},{"id":"https://openalex.org/C119857082","wikidata":"https://www.wikidata.org/wiki/Q2539","display_name":"Machine learning","level":1,"score":0.3345333933830261},{"id":"https://openalex.org/C121332964","wikidata":"https://www.wikidata.org/wiki/Q413","display_name":"Physics","level":0,"score":0.0},{"id":"https://openalex.org/C62520636","wikidata":"https://www.wikidata.org/wiki/Q944","display_name":"Quantum mechanics","level":1,"score":0.0},{"id":"https://openalex.org/C13280743","wikidata":"https://www.wikidata.org/wiki/Q131089","display_name":"Geodesy","level":1,"score":0.0},{"id":"https://openalex.org/C199360897","wikidata":"https://www.wikidata.org/wiki/Q9143","display_name":"Programming language","level":1,"score":0.0},{"id":"https://openalex.org/C205649164","wikidata":"https://www.wikidata.org/wiki/Q1071","display_name":"Geography","level":0,"score":0.0},{"id":"https://openalex.org/C163258240","wikidata":"https://www.wikidata.org/wiki/Q25342","display_name":"Power (physics)","level":2,"score":0.0}],"mesh":[{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000483","descriptor_name":"Alleles","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000818","descriptor_name":"Animals","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D000939","descriptor_name":"Epitopes","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000235","qualifier_name":"genetics","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000276","qualifier_name":"immunology","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006680","descriptor_name":"HLA Antigens","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D006801","descriptor_name":"Humans","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D009842","descriptor_name":"Oligopeptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009842","descriptor_name":"Oligopeptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D009842","descriptor_name":"Oligopeptides","qualifier_ui":"Q000378","qualifier_name":"metabolism","is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D011485","descriptor_name":"Protein Binding","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D015203","descriptor_name":"Reproducibility of Results","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019295","descriptor_name":"Computational Biology","qualifier_ui":"Q000379","qualifier_name":"methods","is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D019985","descriptor_name":"Benchmarking","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false},{"descriptor_ui":"D051379","descriptor_name":"Mice","qualifier_ui":null,"qualifier_name":null,"is_major_topic":false}],"locations_count":7,"locations":[{"id":"doi:10.1186/1471-2105-15-241","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-241","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-241","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},{"id":"pmid:25017736","is_oa":false,"landing_page_url":"https://pubmed.ncbi.nlm.nih.gov/25017736","pdf_url":null,"source":{"id":"https://openalex.org/S4306525036","display_name":"PubMed","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC bioinformatics","raw_type":null},{"id":"pmh:oai:pubmedcentral.nih.gov:4111843","is_oa":true,"landing_page_url":"https://www.ncbi.nlm.nih.gov/pmc/articles/4111843","pdf_url":null,"source":{"id":"https://openalex.org/S2764455111","display_name":"PubMed Central","issn_l":null,"issn":null,"is_oa":true,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I1299303238","host_organization_name":"National Institutes of Health","host_organization_lineage":["https://openalex.org/I1299303238"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"Text"},{"id":"pmh:oai:ri.conicet.gov.ar:11336/17977","is_oa":true,"landing_page_url":"http://hdl.handle.net/11336/17977","pdf_url":null,"source":{"id":"https://openalex.org/S4306402641","display_name":"LA Referencia (Red Federada de Repositorios Institucionales de Publicaciones Cient\u00edficas)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I4383465926","host_organization_name":"LA Referencia","host_organization_lineage":["https://openalex.org/I4383465926"],"host_organization_lineage_names":[],"type":"repository"},"license":"other-oa","license_id":"https://openalex.org/licenses/other-oa","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"reponame:CONICET Digital (CONICET)","raw_type":"info:eu-repo/semantics/article"},{"id":"pmh:oai:pure.atira.dk:openaire_cris_publications/c7b5e5dc-f1c0-4079-bfa5-3a339a6da771","is_oa":false,"landing_page_url":"https://curis.ku.dk/portal/da/publications/dataset-size-and-composition-impact-the-reliability-of-performance-benchmarks-for-peptidemhc-binding-predictions(c7b5e5dc-f1c0-4079-bfa5-3a339a6da771).html","pdf_url":null,"source":{"id":"https://openalex.org/S4306401983","display_name":"Research at the University of Copenhagen (University of Copenhagen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I124055696","host_organization_name":"University of Copenhagen","host_organization_lineage":["https://openalex.org/I124055696"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Kim , Y , Sidney , J , Buus , S , Sette , A , Nielsen , M & Peters , B 2014 , ' Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions ' , B M C Bioinformatics , vol. 15 , pp. 241 . https://doi.org/10.1186/1471-2105-15-241","raw_type":"article"},{"id":"pmh:oai:pure.atira.dk:publications/b2c89023-f834-4118-9a93-a610ac7f29b3","is_oa":true,"landing_page_url":"https://orbit.dtu.dk/en/publications/b2c89023-f834-4118-9a93-a610ac7f29b3","pdf_url":null,"source":{"id":"https://openalex.org/S4306400705","display_name":"Technical University of Denmark, DTU Orbit (Technical University of Denmark, DTU)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I96673099","host_organization_name":"Technical University of Denmark","host_organization_lineage":["https://openalex.org/I96673099"],"host_organization_lineage_names":[],"type":"repository"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Kim , Y , Sidney , J , Buus , S , Sette , A , Nielsen , M &amp; Peters , B 2014 , ' Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions ' , B M C Bioinformatics , vol. 15 , no. 1 , 241 . https://doi.org/10.1186/1471-2105-15-241","raw_type":"article"},{"id":"pmh:oai:pure.atira.dk:publications/c7b5e5dc-f1c0-4079-bfa5-3a339a6da771","is_oa":false,"landing_page_url":"https://researchprofiles.ku.dk/da/publications/c7b5e5dc-f1c0-4079-bfa5-3a339a6da771","pdf_url":null,"source":{"id":"https://openalex.org/S4306401983","display_name":"Research at the University of Copenhagen (University of Copenhagen)","issn_l":null,"issn":null,"is_oa":false,"is_in_doaj":false,"is_core":false,"host_organization":"https://openalex.org/I124055696","host_organization_name":"University of Copenhagen","host_organization_lineage":["https://openalex.org/I124055696"],"host_organization_lineage_names":[],"type":"repository"},"license":null,"license_id":null,"version":"submittedVersion","is_accepted":false,"is_published":false,"raw_source_name":"Kim , Y , Sidney , J , Buus , S , Sette , A , Nielsen , M & Peters , B 2014 , ' Dataset size and composition impact the reliability of performance benchmarks for peptide-MHC binding predictions ' , B M C Bioinformatics , vol. 15 , pp. 241 . https://doi.org/10.1186/1471-2105-15-241","raw_type":"article"}],"best_oa_location":{"id":"doi:10.1186/1471-2105-15-241","is_oa":true,"landing_page_url":"https://doi.org/10.1186/1471-2105-15-241","pdf_url":"https://bmcbioinformatics.biomedcentral.com/counter/pdf/10.1186/1471-2105-15-241","source":{"id":"https://openalex.org/S19032547","display_name":"BMC Bioinformatics","issn_l":"1471-2105","issn":["1471-2105"],"is_oa":true,"is_in_doaj":true,"is_core":true,"host_organization":"https://openalex.org/P4310320256","host_organization_name":"BioMed Central","host_organization_lineage":["https://openalex.org/P4310320256","https://openalex.org/P4310319965"],"host_organization_lineage_names":["BioMed Central","Springer Nature"],"type":"journal"},"license":"cc-by","license_id":"https://openalex.org/licenses/cc-by","version":"publishedVersion","is_accepted":true,"is_published":true,"raw_source_name":"BMC Bioinformatics","raw_type":"journal-article"},"sustainable_development_goals":[],"awards":[{"id":"https://openalex.org/G3594025709","display_name":null,"funder_award_id":"HHSN272201200010C","funder_id":"https://openalex.org/F4320306085","funder_display_name":"U.S. Department of Health and Human Services"},{"id":"https://openalex.org/G6845131987","display_name":null,"funder_award_id":"HHSN272201200010C","funder_id":"https://openalex.org/F4320332161","funder_display_name":"National Institutes of Health"}],"funders":[{"id":"https://openalex.org/F4320306085","display_name":"U.S. Department of Health and Human Services","ror":"https://ror.org/033jnv181"},{"id":"https://openalex.org/F4320321594","display_name":"Consejo Nacional de Investigaciones Cient\u00edficas y T\u00e9cnicas","ror":"https://ror.org/03cqe8w59"},{"id":"https://openalex.org/F4320332161","display_name":"National Institutes of Health","ror":"https://ror.org/01cwqze88"}],"has_content":{"grobid_xml":true,"pdf":true},"content_urls":{"pdf":"https://content.openalex.org/works/W2012523084.pdf","grobid_xml":"https://content.openalex.org/works/W2012523084.grobid-xml"},"referenced_works_count":32,"referenced_works":["https://openalex.org/W1520434148","https://openalex.org/W1607198972","https://openalex.org/W1675195038","https://openalex.org/W1973948212","https://openalex.org/W1988848470","https://openalex.org/W1990748933","https://openalex.org/W2028339001","https://openalex.org/W2035652746","https://openalex.org/W2053843590","https://openalex.org/W2053931156","https://openalex.org/W2055132429","https://openalex.org/W2094619873","https://openalex.org/W2094706980","https://openalex.org/W2111066113","https://openalex.org/W2114970943","https://openalex.org/W2117064132","https://openalex.org/W2120682057","https://openalex.org/W2122779464","https://openalex.org/W2123169315","https://openalex.org/W2125644345","https://openalex.org/W2125732073","https://openalex.org/W2127814614","https://openalex.org/W2142739377","https://openalex.org/W2150383532","https://openalex.org/W2154509769","https://openalex.org/W2168688111","https://openalex.org/W2169628767","https://openalex.org/W2296221004","https://openalex.org/W2917210380","https://openalex.org/W3140968660","https://openalex.org/W4285719527","https://openalex.org/W4299689471"],"related_works":["https://openalex.org/W2378211422","https://openalex.org/W4318612353","https://openalex.org/W4389829534","https://openalex.org/W4400065455","https://openalex.org/W2040236930","https://openalex.org/W2944249082","https://openalex.org/W2935025214","https://openalex.org/W2095987352","https://openalex.org/W4401407419","https://openalex.org/W2596476457"],"abstract_inverted_index":{"BACKGROUND:":[0],"It":[1,190],"is":[2],"important":[3],"to":[4,17,36,67,98,127,130,171,182,184,218,269],"accurately":[5],"determine":[6,37],"the":[7,29,56,64,69,73,99,120,131,137,214,254],"performance":[8,39,118,187,198,202,276],"of":[9,28,58,133,150,175,228],"peptide:MHC":[10],"binding":[11,223,233,243],"predictions,":[12],"as":[13,106],"this":[14,219],"enables":[15],"users":[16],"compare":[18],"and":[19,25,52,55,146,178,212,245,257,281],"choose":[20],"between":[21,278],"different":[22,279],"prediction":[23,38,80,91,165,197],"methods":[24],"provides":[26],"estimates":[27,199,285],"expected":[30],"error":[31,284],"rate.":[32],"Two":[33],"common":[34],"approaches":[35],"are":[40,47,235,247],"cross-validation,":[41],"in":[42,136,161],"which":[43,104,231],"all":[44],"available":[45],"data":[46,65,95,265],"iteratively":[48],"split":[49],"into":[50,272],"training":[51,152],"testing":[53],"data,":[54],"use":[57,168],"blind":[59,108,121,154,164,206],"sets":[60],"generated":[61,82,93,205],"separately":[62],"from":[63,88],"used":[66],"construct":[68],"predictive":[70],"method.":[71],"In":[72],"present":[74],"study,":[75],"we":[76,141],"have":[77,238],"compared":[78],"cross-validated":[79,114,162,196],"performances":[81,92,115],"on":[83,94,119,203,242,289],"our":[84],"last":[85],"benchmark":[86,264,290],"dataset":[87],"2009":[89],"with":[90,158],"subsequently":[96],"added":[97],"Immune":[100],"Epitope":[101],"Database":[102],"(IEDB)":[103],"served":[105],"a":[107],"set.":[109,122],"RESULTS:":[110],"We":[111,167,209],"found":[112,125,142],"that":[113,143,195],"systematically":[116],"overestimated":[117],"This":[123,267],"was":[124],"not":[126],"be":[128,183,270],"due":[129],"presence":[132],"similar":[134],"peptides":[135,229],"cross-validation":[138],"dataset.":[139],"Rather,":[140],"small":[144],"size":[145],"low":[147],"sequence/affinity":[148],"diversity":[149],"either":[151],"or":[153],"datasets":[155,180,252],"were":[156],"associated":[157],"large":[159,177],"differences":[160],"vs.":[163],"performances.":[166],"these":[169],"findings":[170],"derive":[172],"quantitative":[173],"rules":[174],"how":[176],"diverse":[179,249],"need":[181],"provide":[185],"generalizable":[186],"estimates.":[188],"CONCLUSION:":[189],"has":[191,268],"long":[192],"been":[193,239],"known":[194],"often":[200],"overestimate":[201],"independently":[204],"set":[207],"data.":[208],"here":[210],"identify":[211],"quantify":[213],"specific":[215],"factors":[216],"contributing":[217],"effect":[220],"for":[221,230,286],"MHC-I":[222],"predictions.":[224],"An":[225],"increasing":[226],"number":[227],"MHC":[232],"affinities":[234],"measured":[236],"experimentally":[237],"selected":[240],"based":[241,288],"predictions":[244,287],"thus":[246],"less":[248],"than":[250],"historic":[251],"sampling":[253],"entire":[255],"sequence":[256],"affinity":[258],"space,":[259],"making":[260],"them":[261],"more":[262],"difficult":[263],"sets.":[266],"taken":[271],"account":[273],"when":[274,282],"comparing":[275],"metrics":[277],"benchmarks,":[280],"deriving":[283],"performance.":[291]},"counts_by_year":[{"year":2026,"cited_by_count":1},{"year":2024,"cited_by_count":6},{"year":2023,"cited_by_count":2},{"year":2022,"cited_by_count":2},{"year":2021,"cited_by_count":8},{"year":2020,"cited_by_count":16},{"year":2019,"cited_by_count":13},{"year":2018,"cited_by_count":11},{"year":2017,"cited_by_count":13},{"year":2016,"cited_by_count":5},{"year":2015,"cited_by_count":5}],"updated_date":"2026-04-29T09:16:38.111599","created_date":"2025-10-10T00:00:00"}
